8QQG | pdb_00008qqg

Structure of BRAF in Complex With Exarafenib (KIN-2787).

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		proprietary model

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		293	0.1 M Hepes pH 6.7, 3.9 M NaCl, 0.10 M SCN

Crystal Properties
Matthews coefficient	Solvent content
4.39	71.97

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 206.778	α = 90
b = 206.778	β = 90
c = 149.382	γ = 90

Symmetry
Space Group	I 41 2 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS EIGER2 X 16M		2020-07-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	0.999	SLS	X10SA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	2.979	146.214	93.9	0.965	6.9	15.9		29475

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.979	3.134			0.359

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.979	146.214	28954	522	88.586	0.225	0.2239	0.2261	0.2612	0.2581	56.222

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
-0.089			-0.089		0.178

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.668
r_dihedral_angle_other_3_deg	29.04
r_dihedral_angle_3_deg	14.571
r_dihedral_angle_4_deg	12.905
r_dihedral_angle_6_deg	11.905
r_dihedral_angle_other_6_deg	11.286
r_lrange_it	6.932
r_lrange_other	6.932
r_dihedral_angle_1_deg	6.736
r_mcangle_it	4.655
r_mcangle_other	4.655
r_scangle_it	3.59
r_scangle_other	3.59
r_mcbond_it	2.608
r_mcbond_other	2.606
r_scbond_it	1.934
r_scbond_other	1.934
r_angle_refined_deg	1.349
r_angle_other_deg	1.083
r_symmetry_nbd_refined	0.174
r_nbd_other	0.157
r_nbd_refined	0.154
r_symmetry_nbd_other	0.148
r_nbtor_refined	0.145
r_xyhbond_nbd_refined	0.122
r_symmetry_nbtor_other	0.071
r_ncsr_local_group_2	0.052
r_chiral_restr	0.05
r_ncsr_local_group_1	0.045
r_ncsr_local_group_3	0.033
r_symmetry_xyhbond_nbd_other	0.006
r_symmetry_xyhbond_nbd_refined	0.006
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6388
Nucleic Acid Atoms
Solvent Atoms	80
Heterogen Atoms	118

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
pointless	data scaling
PHASER	phasing